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Table 5 Comparison of three different networks at level 1.

From: Biana: a software framework for compiling biological interactions and analyzing networks

Disease

Keywords

Initial Set

PPI

PPI + inferred interactions

Cancer

Cancer, tumor, metastasis

985 (93)

2782 (251)

6272 (489)

Diabetes

Diabetes

86 (10)

284 (19)

2121 (54)

Alzheimer

Alzheimer

30 (4)

138 (6)

1098 (12)

  1. Comparison of three different networks at level 1 using reported protein-protein interactions vs. using inferred interactions by sequence homology. A BIANA database has been created using the following databases: Uniprot Swissprot, IntAct, MINT, BioGrid, DIP and HPRD. Three different initial data sets related with three different pathologies have been created by a keyword search in fields Disease, Keyword, Description and Function. Two networks at level 1 have been created for each set: 1) using reported protein-protein interactions by third-party databases and 2) using inferred interactions by using sequence similarity (see text for details). For each network we calculated the number of proteins involved in the pathologies according to HEFalMp [75] with a p < 0.00001 (shown in parenthesis). By using inferred interactions a higher number of candidates are retrieved.
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BMC Bioinformatics

ISSN: 1471-2105

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